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Table 2 Comparison of DE genes between SL samples (within SL comparison)*

From: Understanding mechanisms of vitiligo development in Smyth line of chickens by transcriptomic microarray analysis of evolving autoimmune lesions

GeneName/Symbol

Accession #

NV

EV

AV

CV

Immunity-related

     

Innate immunity-related

     

similar to MD-2

BX932484

1.56d

5.47b

8.02a

3.47c

LYZ

CR390743

1.40c

4.70b

8.64a

4.22b

lymphotactin

BX930561

0.93b

2.29a

2.66a

2.18a

Myeloid antimicrobial peptide 27

DQ092352

0.63b

0.78b

8.71a

12.67a

Estrogen responsive finger protein

BX950599

0.95c

2.80a

2.94a

1.91b

GAL7

AY621309

1.00b

0.89b

6.20a

5.59a

GBP

X92112

2.56c

11.57a

9.87a

6.09b

Very large inducible GTPase-1

TC195275

0.44c

2.70a

1.99a

0.80b

IRF8

L39767

1.09c

1.66b

2.79a

2.43a

IRF1

L39766

1.58c

5.72a

5.22a

2.52b

TLR15

DQ267901

1.23c

5.49a

7.62a

2.59b

C3

U16848

0.99c

1.57b

2.23a

0.99b

C-C chemokine receptor 11 like

TC224438

1.51c

4.49b

6.96a

6.00ab

Chemokine ah294

TC190676

1.51c

6.08a

6.84a

2.78b

Cytokine

L34552

1.19c

3.74ab

4.16a

2.61b

CXCR4

AF294794

1.45c

1.99b

3.86a

2.06b

IL15

AF152927

0.91c

1.31b

1.96a

1.26b

IL18

AY775780

1.14d

2.22b

3.74a

1.68c

Beta-defensin

CO769187

0.96c

1.12c

10.25b

17.27a

TNFSF13B

AJ721035

2.05c

8.89b

14.91a

6.63b

chemokine (C-C motif) receptor 8

AJ720982

1.38c

3.40a

4.07a

2.39b

phosphoinositide-3-kinase, regulatory subunit 5

AJ720866

1.19c

1.76b

2.68a

1.57b

CD200 receptor 1

BX935064

1.65a

0.71c

1.27ab

0.96b

C3AR1

AJ720748

2.02c

6.38ab

9.49a

4.73b

MALT1

AJ851524

1.01c

2.56b

3.81a

2.45b

CD39

CR385269

0.89c

1.59b

2.11a

1.45b

FKBP1B

BU107658

0.73a

0.39b

0.21c

0.27c

similar to IMMUNE RESPONSIVE PROTEIN 1

AJ720739

1.32c

6.04a

10.21a

3.29b

hematopoietic cell-specific Lyn substrate 1

AJ719284

0.86c

2.24ab

3.36a

1.95b

CD83

CR733120

1.71d

3.71b

5.59a

2.73c

IRF4

AF320331

1.22b

1.38b

3.07a

3.60a

similar to Cathepsin L

BX934408

1.25c

2.34b

3.43a

1.80b

Adaptive immunity-related

     

CR2

AJ720954

1.16c

5.04b

7.79a

4.47b

POU2AF1

AJ720333

1.95c

4.00b

14.79a

16.84a

BTK

AJ719782

0.93c

2.18b

3.25a

2.16b

Mucolipin 2

TC215961

1.36d

5.33b

9.59a

3.25c

PIK3AP1

AF315784

1.29c

2.57b

4.57a

2.92b

CD5

Y12011

0.86c

2.06ab

2.61a

1.69b

TRAF3-interacting JNK-activating modulator

TC210615

1.64c

3.07b

4.98a

2.45b

SPI1

Y12225

1.24c

4.08a

5.23a

2.22b

LAT2

BX950412

0.88c

1.25b

2.89a

2.15a

IL2RG

AJ419896

1.56c

2.54b

4.22a

2.46b

LCP1

AJ719624

1.05c

1.89b

2.54a

1.54b

CD8 beta chain

Z26484

1.31c

3.52a

3.24a

2.11b

TCR beta chain

M81150

1.21c

2.55b

3.71a

2.71ab

MHCII

U76305

1.21c

2.37b

3.77a

1.84b

B2M

AB178593

0.98c

1.77b

2.94a

1.66b

TAP2

AJ843262

1.19c

4.40a

4.26a

2.28b

GZMA

AJ544060

2.48b

6.86a

6.79a

2.96b

Melanocyte-related

     

TYR

AB023291

1.22a

1.00a

0.40b

0.07c

TRP1

AF003631

1.03a

1.03a

0.24b

0.03c

MMP115

D88348

0.92a

0.46b

0.17c

0.07d

SLC24A5

TC191950

0.93a

0.50b

0.13c

0.05d

SLC24A2

AF177985

1.08a

0.78b

0.45c

0.48c

GPR143

BX950829

1.16a

0.74b

0.26c

0.11d

V-ATPase C2 subunit

TC218700

0.83a

0.62ab

0.50b

0.12c

Shikimate 5-dehydrogenase

TC216663

0.86a

0.20d

0.29c

0.51b

Stress-related

     

NPY

M87294

1.03a

0.13d

0.41c

0.94b

CRYAB

U26661

1.14a

0.18c

0.24b

0.56b

BLVRA

BU468223

0.96c

1.27c

1.80b

2.91a

GSTA1

L15386

1.19c

0.73c

2.00a

1.40b

Gp91-phox

TC214833

1.50d

3.01c

10.02a

5.43b

CD163

CR406525

1.39c

2.18b

3.93a

1.80c

neutrophil cytosolic factor 1

AJ719555

0.90d

2.57b

4.64a

1.49c

Cytochrome b

TC220424

1.38b

5.06a

6.91a

5.14a

Acetyl-CoA carboxylase 2

TC206581

1.08d

3.58a

2.28b

1.59c

LITAF

AB058634

1.41d

5.48c

14.05a

9.29b

CARD11

AJ851540

1.03c

2.63b

4.62a

2.01b

Gasdermin 1

AJ721093

0.83c

2.14a

2.89a

1.27b

TRAF5

AJ720372

1.30c

2.65b

4.25a

2.35b

PDCD1

CR390246

1.44d

3.91a

5.67a

2.38c

Others

     

GJA5

M35043

1.01a

0.73b

0.51c

0.43c

TMEM9

TC216868

0.91a

0.70b

0.51c

0.32d

ATP synthase F0 subunit 8

TC213211

1.20c

3.40a

3.30a

2.13b

Novel Ras family member protein

TC196126

1.28c

2.64ab

3.31a

2.23b

KCNMB1

AF077369

0.83c

1.78b

2.80a

2.51a

BTN1A1

AY847576

0.81c

1.79b

2.53a

1.84b

TF

AB215094

0.97d

2.41b

3.83a

1.54c

GPR174

AJ719761

2.04c

4.02b

6.58a

3.92b

LIMD2

AJ721104

0.93c

1.62b

2.31a

1.54b

TSPAN15

AJ720604

1.00c

2.01b

3.27a

1.69b

LOC423781

CR405911

0.86c

2.42b

4.26a

2.37b

ASAHL

BX950518

1.47c

3.60b

6.29a

2.87b

SYT12

BX936066

0.80a

0.59b

0.33c

0.42c

AKAP12

BX932296

0.96a

0.71b

0.46c

0.39c

AGR2

BX934938

0.88a

0.67b

0.41c

0.38c

similar to Rho-GTPase-activating protein 6

CR407051

1.08d

2.50b

3.66a

1.44c

FBP2

BU312699

1.06a

0.63b

0.46c

0.37c

  1. *: NV indicates that growing feather samples were from SL chickens that never developed vitiligo; EV, AV, and CV indicate that growing feather samples were collected from SL chickens with vitiligo (SLV) within 1 week before SLV onset, during active depigmentation and at least one week after complete loss of pigmentation, respectively. Normalized microarray data were filtered to include only fluorescence values above 100 and analyzed by JMP genomics 4 to determine differences in NV, EV, AV and CV gene expression levels. Values in the body of the table were mean expression (n = 3) relative to BL samples, where numbers > 1 and < 1 represents up-regulated and down-regulated expression, respectively. Means without a common letter were significantly different at P ≤ 0.05